J5_8UD8_015

3D structure

PDB id

8UD8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.70A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

GCAAGUUGG*UG*CC*GUGAACAGG*CGC

Length

25 nucleotides

Bulged bases

8UD8|1|2A|G|1758, 8UD8|1|2A|G|1763

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

J5_8UD8_015 not in the Motif Atlas

Homologous match to J5_9DFE_005

Geometric discrepancy: 0.06

The information below is about J5_9DFE_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_99177.1

Basepair signature

cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

10

Unit IDs

8UD8|1|2A|G|1674
8UD8|1|2A|C|1675
8UD8|1|2A|A|1676
8UD8|1|2A|A|1677
8UD8|1|2A|G|1678
8UD8|1|2A|U|1679
8UD8|1|2A|U|1680
8UD8|1|2A|G|1681
8UD8|1|2A|G|1682
*
8UD8|1|2A|U|1706
8UD8|1|2A|G|1707
*
8UD8|1|2A|C|1751
8UD8|1|2A|C|1752
*
8UD8|1|2A|G|1756
8UD8|1|2A|U|1757
8UD8|1|2A|G|1758
8UD8|1|2A|A|1759
8UD8|1|2A|A|1760
8UD8|1|2A|C|1761
8UD8|1|2A|A|1762
8UD8|1|2A|G|1763
8UD8|1|2A|G|1764
*
8UD8|1|2A|C|1988
8UD8|1|2A|G|1989
8UD8|1|2A|C|1990

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2E

50S ribosomal protein L3

Chain 2O

50S ribosomal protein L14

Chain 2T

50S ribosomal protein L19

Chain 2a

Small subunit ribosomal RNA; SSU rRNA